Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 111 of 144
Found at i:34331076 original size:25 final size:25
Alignment explanation
Indices: 34331003--34331078 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 25
34330993 ACTAAAATAA
** *
34331003 AATATGTATAATGCAATTAAAATTTA
1 AATAT-TATAATAAAATTAAAATTTT
*
34331029 AATATTATATTAAAA-TAAAATTTT
1 AATATTATAATAAAATTAAAATTTT
*
34331053 AAT-TTAATAATAAAATTAATATTTT
1 AATATT-ATAATAAAATTAAAATTTT
34331078 A
1 A
34331079 TTAATTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
23 2 0.05
24 19 0.45
25 16 0.38
26 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (25 bp):
AATATTATAATAAAATTAAAATTTT
Found at i:34332182 original size:2 final size:2
Alignment explanation
Indices: 34332175--34332200 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34332165 AAAATTAGGA
34332175 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
34332201 TCGAATAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:34344161 original size:302 final size:301
Alignment explanation
Indices: 34343616--34344197 Score: 1085
Period size: 302 Copynumber: 1.9 Consensus size: 301
34343606 ATTCTTCACC
*
34343616 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGGCACCAATATGATTCAT
1 ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
*
34343681 CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAATTTAGGGTGACCAATCAAGCAGTTTTCTTT
66 CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTTT
34343746 CTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
131 CTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
*
34343811 AGCGCTCAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
196 AGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
*
34343876 CATGGTAGAGCTCTTCTCCGTGTTTATGCAGTGCAGTCTAT
261 CACGGTAGAGCTCTTCTCCGTGTTTATGCAGTGCAGTCTAT
34343917 ATGCTGAAACTAATTA-CCCTGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA
1 ATGCTGAAACTAATTATCCC-GATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCA
34343981 TCTAAAGGTCTGTTGATCTCTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCT
65 TCTAAAGGTCTGTTGATCT-TTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCT
* *
34344046 TTCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCGCTGCATACAAGATCTCATT
129 TTCTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATT
34344111 CAAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGC
194 CAAGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGC
34344176 GACACGGTAGAGCTCTTCTCCG
259 GACACGGTAGAGCTCTTCTCCG
34344198 AGTATCAATT
Statistics
Matches: 273, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
300 3 0.01
301 78 0.29
302 192 0.70
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (301 bp):
ATGCTGAAACTAATTATCCCGATGTGGTCTCTGTTAACAATACCCGTGACACCAATATGATTCAT
CTAAAGGTCTGTTGATCTTTGAAATTAATTGAAAACTTAGGGTGACCAATCAAGCAGTTTTCTTT
CTCTTTTTACTTCTATTGCTTTACGATTTATCATATAGACTGCACTGCATAAAAGATCTCATTCA
AGCGCACAACAAATTTACCTCAAGCTATATCATTTAATCAAATGTTCTGCTTGAAGGCAATGCGA
CACGGTAGAGCTCTTCTCCGTGTTTATGCAGTGCAGTCTAT
Found at i:34348766 original size:22 final size:22
Alignment explanation
Indices: 34348738--34348780 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
34348728 ACTAAAACTC
34348738 AAAAAATAAAATTCCTTATTTT
1 AAAAAATAAAATTCCTTATTTT
34348760 AAAAAATAAAATTCCTTATTT
1 AAAAAATAAAATTCCTTATTT
34348781 GAATTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAAATAAAATTCCTTATTTT
Found at i:34361267 original size:30 final size:30
Alignment explanation
Indices: 34361233--34361293 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34361223 TCCTTAACTC
34361233 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34361263 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34361293 A
1 A
34361294 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34370610 original size:30 final size:30
Alignment explanation
Indices: 34370575--34370631 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34370565 AAGCAGTTCT
*
34370575 ACACGGGTA-ATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACACCCGTGTGTGAC
34370605 ACACGGGTAGACCACACACCCGTGTGT
1 ACACGGGTAGACCACACACCCGTGTGT
34370632 CATGGCCATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (30 bp):
ACACGGGTAGACCACACACCCGTGTGTGAC
Found at i:34372523 original size:43 final size:42
Alignment explanation
Indices: 34372368--34372524 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
34372358 ATGTGTTATC
* * *
34372368 GTGTAAGACCACGTCTAGGATGTTGGAATCGA-ATTATGATTA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTA
* *
34372410 TGTGTAAGACCACATATGGGACGTTGGCATCG-TATTTGATTTA
1 -GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTA
** * * **
34372453 GTGTAAGACCTTGTTTGGAACAATGGCATCGATATTTGATTA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
* *
34372495 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 -GTGTAAGACCACGTCTGGGACGTTGGCAT
34372525 TGTACAAGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.33
43 60 0.67
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:34373754 original size:120 final size:120
Alignment explanation
Indices: 34373581--34374078 Score: 996
Period size: 120 Copynumber: 4.2 Consensus size: 120
34373571 CGACCAAAGG
34373581 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
1 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
34373646 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
66 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
34373701 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
1 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
34373766 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
66 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
34373821 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
1 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
34373886 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
66 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
34373941 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
1 CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
34374006 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
66 GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
34374061 CTAGACACACGGGCGTGT
1 CTAGACACACGGGCGTGT
34374079 CTAAAGCCGT
Statistics
Matches: 378, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 378 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.25
Consensus pattern (120 bp):
CTAGACACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGGCACACGA
GCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCTGTTTTGACATGGC
Found at i:34373770 original size:53 final size:53
Alignment explanation
Indices: 34373706--34374011 Score: 157
Period size: 53 Copynumber: 5.2 Consensus size: 53
34373696 ATGGCCTAGA
*
34373706 CACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
1 CACACGAGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
* ** * * * *
34373759 CACACGAGCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCT-GTTTTGACATGGCCT
1 CACACGAGCGTG-----TGACC-------CAAGTCAGTA-GCCT-CCTTAATTTTCACACGGCCT
*
34373823 AGA
52 -GG
*
34373826 CACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
1 CACACGAGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
* ** * * * *
34373879 CACACGAGCGTGTCATATGGCCGTGTGGACAAGTCAGTATGTATGCCCT-GTTTTGACATGGCCT
1 CACACGAGCGTG-----TGACC-------CAAGTCAGTA-GCCT-CCTTAATTTTCACACGGCCT
*
34373943 AGA
52 -GG
*
34373946 CACACGGGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
1 CACACGAGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
34373999 CACACGAGCGTGT
1 CACACGAGCGTGT
34374012 CATATGGCCG
Statistics
Matches: 184, Mismatches: 37, Indels: 64
0.65 0.13 0.22
Matches are distributed among these distances:
53 42 0.23
54 28 0.15
55 20 0.11
58 8 0.04
62 8 0.04
65 20 0.11
66 28 0.15
67 30 0.16
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (53 bp):
CACACGAGCGTGTGACCCAAGTCAGTAGCCTCCTTAATTTTCACACGGCCTGG
Found at i:34374399 original size:51 final size:50
Alignment explanation
Indices: 34374317--34374414 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 50
34374307 ATGCCTTTAC
* * * **
34374317 AAAATAAATTTTGTTAAACGACAGGATTAAATCCTGAAACAAAATTATATT
1 AAAATAAAATCTGTTAAACGACAGGAATAAATCCCCAAA-AAAATTATATT
***
34374368 AAAATAAAATCTGTTAAACGGTGGGAATAAATCCCCAAAAAAATTAT
1 AAAATAAAATCTGTTAAACGACAGGAATAAATCCCCAAAAAAATTAT
34374415 TTGAATACGT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
50 8 0.21
51 31 0.79
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (50 bp):
AAAATAAAATCTGTTAAACGACAGGAATAAATCCCCAAAAAAATTATATT
Found at i:34374626 original size:84 final size:84
Alignment explanation
Indices: 34374474--34374707 Score: 297
Period size: 84 Copynumber: 2.7 Consensus size: 84
34374464 TTAGATGCTG
* * * * * *
34374474 GGAAAAAATCCCAAAACAAATTTTATTTACTTTTAATTCTAATTTGGAAACAAAATAAAATCAGA
1 GGAATAAATCCCGAAACAAATTTTATTTA-ATTTAATTTTAATTTGGAAACAAAATAAAATAAAA
*
34374539 TAAAATTTTGGTAAACGGCA
65 TAAAATCTTGGTAAACGGCA
* * *
34374559 GGAATAAATCCTGAAACAAATTTTATTTAATTTAATTTTGATTTGGAAATAAAATAAAATAAAAT
1 GGAATAAATCCCGAAACAAATTTTATTTAATTTAATTTTAATTTGGAAACAAAATAAAATAAAAT
*
34374624 AAAATCTTGTTAAACGGCA
66 AAAATCTTGGTAAACGGCA
* *
34374643 GGAATAAATCCCGAAACAGATTTTATTTAATTTTAATTTCTTATTTTCGGAAACAAAATTAAAAT
1 GGAATAAATCCCGAAACAAATTTTATTTAA-TTTAA-TT-TTAATTT-GGAAACAAAA-TAAAAT
34374708 GTAATAAATT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 75 0.59
85 31 0.24
86 2 0.02
87 5 0.04
88 9 0.07
89 6 0.05
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (84 bp):
GGAATAAATCCCGAAACAAATTTTATTTAATTTAATTTTAATTTGGAAACAAAATAAAATAAAAT
AAAATCTTGGTAAACGGCA
Found at i:34374801 original size:79 final size:79
Alignment explanation
Indices: 34374710--34374875 Score: 230
Period size: 79 Copynumber: 2.1 Consensus size: 79
34374700 ATTAAAATGT
* *
34374710 AATAAATTCGTTGAATAG-TGGGAA-CAAATCCCGAAACGA-ATTTTATTTTACTCGTTTTTGGA
1 AATAAAATCGTTGAA-AGACGGGAATC-AATCCCGAAA-GAGATTTTATTTTACTCGTTTTTGGA
34374772 AATAAAACAAAATTTGG
63 AATAAAACAAAATTTGG
* * * *
34374789 AATAAAATCGTTGCACGACGGGAATCAATCCCGAAATAGATTTTATTTTACTCGTTTTTGTAAAT
1 AATAAAATCGTTGAAAGACGGGAATCAATCCCGAAAGAGATTTTATTTTACTCGTTTTTGGAAAT
34374854 AAAACAAAATTTGG
66 AAAACAAAATTTGG
34374868 AATAAAAT
1 AATAAAAT
34374876 TTGTAACACC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 75 0.96
80 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (79 bp):
AATAAAATCGTTGAAAGACGGGAATCAATCCCGAAAGAGATTTTATTTTACTCGTTTTTGGAAAT
AAAACAAAATTTGG
Found at i:34382715 original size:25 final size:23
Alignment explanation
Indices: 34382682--34382744 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
34382672 AAATGTCCAA
*
34382682 CCAAAACACACCAGTATAGTCCT
1 CCAAAACACACCAGTATAATCCT
*
34382705 CCAAAACACACTAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
34382728 CCAAAACACACCAGTAT
1 CCAAAACACACCAGTAT
34382745 CATATAATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.43, C:0.33, G:0.06, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGTATAATCCT
Found at i:34382774 original size:23 final size:23
Alignment explanation
Indices: 34382682--34382802 Score: 98
Period size: 23 Copynumber: 4.8 Consensus size: 23
34382672 AAATGTCCAA
* *
34382682 CCAAAACACACCAGTATAGTCCT
1 CCAAAACACACCAGAATAATCCT
* *
34382705 CCAAAACACACTAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
34382728 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
34382756 CCCAAACACACCAGAATAATATAACCCAT
1 CCAAAACACACCAGAAT-A-AT---CC-T
34382785 CCAAAACACACCAGAATA
1 CCAAAACACACCAGAATA
34382803 GCACAAAGTG
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
23 36 0.44
24 2 0.02
25 2 0.02
28 24 0.30
29 17 0.21
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:34382798 original size:29 final size:28
Alignment explanation
Indices: 34382719--34382802 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
34382709 AACACACTAG
* *
34382719 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
34382747 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
34382775 TATAACCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
34382803 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:34393229 original size:29 final size:29
Alignment explanation
Indices: 34393187--34393320 Score: 130
Period size: 29 Copynumber: 4.6 Consensus size: 29
34393177 CACCATCAGT
*
34393187 ACATAGTACCTGATAAATATAACACCGAC
1 ACATAGTACCTGATAAATATAACACCAAC
* *
34393216 ACATAGTGCCTGATAAATATAACACTGAATC
1 ACATAGTACCTGATAAATATAACAC-CAA-C
** * *
34393247 A-A-AGTACCTGAT-AATATGTTCATCAAT
1 ACATAGTACCTGATAAATAT-AACACCAAC
*
34393274 ACATAGTACCTGATCAATATAATCACCAAC
1 ACATAGTACCTGATAAATATAA-CACCAAC
*
34393304 ACATAGTGCCTGATAAA
1 ACATAGTACCTGATAAA
34393321 CCCTAATGAC
Statistics
Matches: 83, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
27 1 0.01
28 8 0.10
29 45 0.54
30 27 0.33
31 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (29 bp):
ACATAGTACCTGATAAATATAACACCAAC
Found at i:34397839 original size:21 final size:20
Alignment explanation
Indices: 34397801--34397850 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
34397791 TTTAGCTCTC
*
34397801 ATGAGCTTCAATTAACTCAT
1 ATGAGTTTCAATTAACTCAT
* *
34397821 ATGAGTTTCCATTCAACTCCT
1 ATGAGTTTCAATT-AACTCAT
34397842 ATGAGTTTC
1 ATGAGTTTC
34397851 TGTTCAACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGAGTTTCAATTAACTCAT
Found at i:34397856 original size:21 final size:21
Alignment explanation
Indices: 34397814--34397875 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
34397804 AGCTTCAATT
* **
34397814 AACTCATATGAGTTTCCATTC
1 AACTCCTATGAGTTTCTGTTC
34397835 AACTCCTATGAGTTTCTGTTC
1 AACTCCTATGAGTTTCTGTTC
* *
34397856 AAC-CCTTACGGGTTTCTGTT
1 AACTCC-TATGAGTTTCTGTT
34397876 AGCACTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (21 bp):
AACTCCTATGAGTTTCTGTTC
Found at i:34405731 original size:13 final size:13
Alignment explanation
Indices: 34405677--34405746 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
34405667 TTATTCAATA
*
34405677 TTAAAATTTTATA
1 TTAAAATTTTATT
34405690 TTAAAATTTTTATTT
1 TTAAAA-TTTTA-TT
*
34405705 TTCAAA-TTTATT
1 TTAAAATTTTATT
*
34405717 TTAAAATTTTCTT
1 TTAAAATTTTATT
*
34405730 TT--AATTTTAGT
1 TTAAAATTTTATT
34405741 TTAAAA
1 TTAAAA
34405747 ATATTAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 9 0.20
12 7 0.15
13 19 0.41
14 5 0.11
15 6 0.13
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (13 bp):
TTAAAATTTTATT
Found at i:34405959 original size:13 final size:13
Alignment explanation
Indices: 34405941--34405967 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34405931 TACTTGTTAT
34405941 AATTAAAAAATTC
1 AATTAAAAAATTC
34405954 AATTAAAAAATTC
1 AATTAAAAAATTC
34405967 A
1 A
34405968 CTTTTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAAAATTC
Found at i:34414147 original size:16 final size:16
Alignment explanation
Indices: 34414123--34414156 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34414113 AAATTAATAA
*
34414123 AGTTGGAATGGTTAAC
1 AGTTAGAATGGTTAAC
34414139 AGTTAGAATGGTTAAC
1 AGTTAGAATGGTTAAC
34414155 AG
1 AG
34414157 CTCCTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (16 bp):
AGTTAGAATGGTTAAC
Found at i:34420168 original size:17 final size:17
Alignment explanation
Indices: 34420146--34420181 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34420136 GTAAAATACG
*
34420146 TTAGCATCTATTTTCAT
1 TTAGCATCCATTTTCAT
34420163 TTAGCATCCATTTTCAT
1 TTAGCATCCATTTTCAT
34420180 TT
1 TT
34420182 TCTTCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (17 bp):
TTAGCATCCATTTTCAT
Found at i:34427746 original size:25 final size:25
Alignment explanation
Indices: 34427677--34427772 Score: 65
Period size: 25 Copynumber: 3.8 Consensus size: 25
34427667 TATGTTAATC
*
34427677 ATTTT-AAATTCCTTTTATTATTATTT
1 ATTTTAAAATT-CTTTTA-TATTACTT
* * *
34427703 ATTTTGAACTT-TCTATATATTACTT
1 ATTTTAAAATTCT-TTTATATTACTT
*
34427728 ATTTTAAAATTCTTTTATATACTCCTT
1 ATTTTAAAATTCTTTTATAT--TACTT
*
34427755 ATCTTAAAA--CTTTTATAT
1 ATTTTAAAATTCTTTTATAT
34427773 ATGTATATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
25 32 0.56
26 9 0.16
27 16 0.28
ACGTcount: A:0.30, C:0.11, G:0.01, T:0.57
Consensus pattern (25 bp):
ATTTTAAAATTCTTTTATATTACTT
Found at i:34427773 original size:25 final size:25
Alignment explanation
Indices: 34427709--34427773 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 25
34427699 ATTTATTTTG
* *
34427709 AACTTTCTATATATTACTTATTTTAA
1 AACTTT-TATATACTACTTATCTTAA
*
34427735 AATTCTTTTATATACTCCTTATCTTAA
1 AA--CTTTTATATACTACTTATCTTAA
34427762 AACTTTTATATA
1 AACTTTTATATA
34427774 TGTATATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 10 0.29
26 2 0.06
27 18 0.53
28 4 0.12
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (25 bp):
AACTTTTATATACTACTTATCTTAA
Found at i:34427825 original size:26 final size:26
Alignment explanation
Indices: 34427791--34427847 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 26
34427781 GTTACTTTGG
*
34427791 ATTATATTTATATATATTTTTATTTTAA
1 ATTAT-TTTATATATA-ATTTATTTTAA
*
34427819 ATTATTTTTTATATAATTTATTTTAA
1 ATTATTTTATATATAATTTATTTTAA
34427845 ATT
1 ATT
34427848 TCTCATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 13 0.48
27 9 0.33
28 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTATTTTATATATAATTTATTTTAA
Found at i:34427964 original size:27 final size:26
Alignment explanation
Indices: 34427921--34428016 Score: 63
Period size: 26 Copynumber: 3.6 Consensus size: 26
34427911 TTACTTTGTG
* *
34427921 TATTATTCATTTTAATTT-ATTTAACA
1 TATTATTTATTTAAATTTGATTT-ACA
* *
34427947 TATTATTTATTTGAAATTTGCTTTATA
1 TATTATTTATTT-AAATTTGATTTACA
* *
34427974 TATTATTTTATTTCAAA-TCGA-TTATA
1 TATTA-TTTATTT-AAATTTGATTTACA
*
34428000 TTTTATTTATGTTAAAT
1 TATTATTTAT-TTAAAT
34428017 CTTTTTCACA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
25 8 0.14
26 22 0.39
27 14 0.25
28 13 0.23
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTATTTATTTAAATTTGATTTACA
Found at i:34444709 original size:27 final size:27
Alignment explanation
Indices: 34444679--34444856 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34444669 ATATTGAGTC
* * * *
34444679 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34444706 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34444733 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34444761 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34444788 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34444815 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34444842 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34444857 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34444818 original size:82 final size:81
Alignment explanation
Indices: 34444700--34444855 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34444690 TGCTATATAA
* *
34444700 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34444765 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34444782 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34444846 CACTTAGTGC
65 CACTTAGTGC
34444856 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34454808 original size:54 final size:54
Alignment explanation
Indices: 34454721--34454886 Score: 260
Period size: 54 Copynumber: 3.1 Consensus size: 54
34454711 ATTCATCCAC
* * *
34454721 ATTTATAGTTAAATCTAATTTAAGTTAGTTTAAATATTTACTTTTATTTTTATA
1 ATTTATAGTTAAATCAAATTTAAGTTAGTTTAAATATTTAATTTAATTTTTATA
* *
34454775 ATTTTTAGTTAAATCAAATTTAAGTTAGTTTAAATATTTAATTTAATTTATATA
1 ATTTATAGTTAAATCAAATTTAAGTTAGTTTAAATATTTAATTTAATTTTTATA
* * *
34454829 ATTTATAGTTAAATCGAATTTAAATTAGTTTAAACATTTAATTTAATTTTTATA
1 ATTTATAGTTAAATCAAATTTAAGTTAGTTTAAATATTTAATTTAATTTTTATA
34454883 ATTT
1 ATTT
34454887 GTATAAAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (54 bp):
ATTTATAGTTAAATCAAATTTAAGTTAGTTTAAATATTTAATTTAATTTTTATA
Found at i:34454815 original size:18 final size:19
Alignment explanation
Indices: 34454791--34454840 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
34454781 AGTTAAATCA
*
34454791 AATTTAAGTTAGTTTAAAT
1 AATTTAAGTTAATTTAAAT
* *
34454810 -ATTTAATTTAATTTATAT
1 AATTTAAGTTAATTTAAAT
34454828 AATTTATAGTTAA
1 AATTTA-AGTTAA
34454841 ATCGAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 15 0.60
19 5 0.20
20 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
AATTTAAGTTAATTTAAAT
Found at i:34455974 original size:24 final size:21
Alignment explanation
Indices: 34455930--34455975 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
34455920 AGTAAAACAC
*
34455930 AAATAATATTTATTTAATAGA
1 AAATAATATTTATCTAATAGA
34455951 AAATAATATTCTACTCTAAGTAGA
1 AAATAATATT-TA-TCTAA-TAGA
34455975 A
1 A
34455976 TGGGGTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 4 0.19
24 5 0.24
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATAATATTTATCTAATAGA
Found at i:34456296 original size:105 final size:105
Alignment explanation
Indices: 34456114--34456323 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 105
34456104 AAGTTTTCGG
*
34456114 ATCAACTCGAATAAAAAATTAAGTTTTTCAATTTAACTCGAATATGAATTACATAATTCGAGTTA
1 ATCAACTCGAATAAAAAATTAAGTTTTTCAATTTAACTCGAATATGAATTACACAATTCGAGTTA
*
34456179 TCTGAAAATCCGAATAAGAAA-TGACAAAACTACGTCGTTT
66 TCTCAAAATCCGAATAAGAAACT-ACAAAACTACGTCGTTT
* * *
34456219 ATCAACTTGAATAAAAAATTAAGTTTTTCAATTTAATTCGAATATGAATTATACAATTCGAGTTA
1 ATCAACTCGAATAAAAAATTAAGTTTTTCAATTTAACTCGAATATGAATTACACAATTCGAGTTA
*
34456284 TC-CAAAACTCCGAATAAGAAACTACAAAACTACGTTGTTT
66 TCTCAAAA-TCCGAATAAGAAACTACAAAACTACGTCGTTT
34456324 GGATAAATAT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
104 4 0.04
105 92 0.95
106 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.32
Consensus pattern (105 bp):
ATCAACTCGAATAAAAAATTAAGTTTTTCAATTTAACTCGAATATGAATTACACAATTCGAGTTA
TCTCAAAATCCGAATAAGAAACTACAAAACTACGTCGTTT
Found at i:34461297 original size:30 final size:30
Alignment explanation
Indices: 34461261--34461320 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34461251 AATTAGTGAT
34461261 TAATTAAGTTATAAGGACAAAATCATAAAG
1 TAATTAAGTTATAAGGACAAAATCATAAAG
* *
34461291 TAATTAAGTTATAGGGACTAAATCATAAAG
1 TAATTAAGTTATAAGGACAAAATCATAAAG
34461321 GTGGTAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (30 bp):
TAATTAAGTTATAAGGACAAAATCATAAAG
Found at i:34462771 original size:41 final size:41
Alignment explanation
Indices: 34462725--34462802 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
34462715 ATGTTGTATG
34462725 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
*
34462766 GATAGTTGGTTTAATGAAAATGCATGATTGAATATTT
1 GATAGTTGGTTTAATGAAAATGCATGATTAAATATTT
34462803 AGTAGACATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (41 bp):
GATAGTTGGTTTAATGAAAATGCATGATTAAATATTTGGTT
Found at i:34469171 original size:22 final size:20
Alignment explanation
Indices: 34469146--34469198 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
34469136 AAGCTCACCC
34469146 ATATTATTTTTTAAAAATATTT
1 ATATTATTTTTT--AAATATTT
*
34469168 ATATTATATTATTTTAATATTT
1 ATATTAT-TT-TTTAAATATTT
34469190 A-ATTATTTT
1 ATATTATTTT
34469199 ATTTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 5 0.18
22 15 0.54
23 2 0.07
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTATTTTTTAAATATTT
Found at i:34469200 original size:21 final size:22
Alignment explanation
Indices: 34469161--34469204 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
34469151 ATTTTTTAAA
34469161 AATATTTATATTATATTATTTT
1 AATATTTATATTATATTATTTT
*
34469183 AATATTTA-ATTATTTTATTTT
1 AATATTTATATTATATTATTTT
34469204 A
1 A
34469205 TTTTTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
AATATTTATATTATATTATTTT
Found at i:34470466 original size:20 final size:20
Alignment explanation
Indices: 34470441--34470502 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
34470431 TTGAAATGTT
*
34470441 AACAGAGGCACCGAAGTACA
1 AACAGAGGCACCGAAGTGCA
* *
34470461 AACAGAAGCACCGAAGTGTA
1 AACAGAGGCACCGAAGTGCA
* *
34470481 AACAAAGGCACCAAAGTGCA
1 AACAGAGGCACCGAAGTGCA
34470501 AA
1 AA
34470503 TCCCATACAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.48, C:0.23, G:0.23, T:0.06
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:34475065 original size:40 final size:39
Alignment explanation
Indices: 34475021--34475125 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
34475011 AGTGACCATA
*
34475021 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
34475061 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
34475099 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
34475126 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34475082 original size:39 final size:40
Alignment explanation
Indices: 34474981--34475144 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
34474971 TTGAATGATG
* *
34474981 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
34475021 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
34475060 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
34475100 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
34475140 TCCGG
1 TCCGG
34475145 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:34475144 original size:79 final size:80
Alignment explanation
Indices: 34474981--34475131 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
34474971 TTGAATGATG
*
34474981 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
34475046 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
34475061 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
34475123 TTGAACGAG
64 TTGAACGAG
34475132 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:34483029 original size:28 final size:28
Alignment explanation
Indices: 34482964--34483145 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
34482954 CATGAGATTG
* * *
34482964 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
34482993 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34483021 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34483049 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34483077 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34483105 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34483132 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34483146 GACTTAATAT
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.16
28 105 0.71
29 18 0.12
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34490619 original size:18 final size:18
Alignment explanation
Indices: 34490596--34490633 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34490586 AAATCAAGTC
34490596 TATCATATATAAGAATTT
1 TATCATATATAAGAATTT
34490614 TATCATATATAAGAATTT
1 TATCATATATAAGAATTT
34490632 TA
1 TA
34490634 GTCTTGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
TATCATATATAAGAATTT
Found at i:34492344 original size:22 final size:22
Alignment explanation
Indices: 34492317--34492381 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 22
34492307 TATCTGCACT
34492317 TTTGAGTGATTTATCCACATCG
1 TTTGAGTGATTTATCCACATCG
* * *
34492339 TTTGAGCAGCTTT-TCTGTACATCG
1 TTTGAG-TGATTTATC--CACATCG
*
34492363 TTTGAGTGGTTTATCCACA
1 TTTGAGTGATTTATCCACA
34492382 CCGCACTAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
22 11 0.33
23 8 0.24
24 14 0.42
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (22 bp):
TTTGAGTGATTTATCCACATCG
Found at i:34496485 original size:9 final size:9
Alignment explanation
Indices: 34496473--34496535 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
34496463 ATACTTTTTG
34496473 ATTTTTTAT
1 ATTTTTTAT
34496482 ATTTTTTCA-
1 ATTTTTT-AT
34496491 ATTTTTTAT
1 ATTTTTTAT
*
34496500 ATTTTATAT
1 ATTTTTTAT
*
34496509 AATGTTTTAT
1 -ATTTTTTAT
34496519 A--TTTTAT
1 ATTTTTTAT
*
34496526 ATTTTATAT
1 ATTTTTTAT
34496535 A
1 A
34496536 ATTGATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 7 0.16
8 1 0.02
9 29 0.64
10 8 0.18
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:34496488 original size:18 final size:18
Alignment explanation
Indices: 34496444--34496523 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 18
34496434 TATATATATA
* *
34496444 ATTTTTTTAAAATTTTCAT
1 ATTTTTTT-AATTTTTTAT
* *
34496463 ATACTTTTTGATTTTTTAT
1 AT-TTTTTTAATTTTTTAT
*
34496482 ATTTTTTCAATTTTTTAT
1 ATTTTTTTAATTTTTTAT
* *
34496500 ATTTTATATAATGTTTTAT
1 ATTTT-TTTAATTTTTTAT
34496519 ATTTT
1 ATTTT
34496524 ATATTTTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
18 18 0.37
19 26 0.53
20 5 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTTTAATTTTTTAT
Found at i:34496504 original size:7 final size:7
Alignment explanation
Indices: 34496494--34496534 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
34496484 TTTTTCAATT
34496494 TTTTATA
1 TTTTATA
34496501 TTTTATA
1 TTTTATA
* *
34496508 --TAATG
1 TTTTATA
34496513 TTTTATA
1 TTTTATA
34496520 TTTTATA
1 TTTTATA
34496527 TTTTATA
1 TTTTATA
34496534 T
1 T
34496535 AATTGATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
5 3 0.11
7 25 0.89
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (7 bp):
TTTTATA
Found at i:34496516 original size:19 final size:20
Alignment explanation
Indices: 34496476--34496527 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
34496466 CTTTTTGATT
*
34496476 TTTTATATTTT-T-TCAATT
1 TTTTATATTTTATATCAATG
34496494 TTTTATATTTTATAT-AATG
1 TTTTATATTTTATATCAATG
34496513 TTTTATATTTTATAT
1 TTTTATATTTTATAT
34496528 TTTATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 11 0.35
19 19 0.61
20 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATATTTTATATCAATG
Found at i:34496604 original size:23 final size:21
Alignment explanation
Indices: 34496573--34496625 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
34496563 TTTTAAATTT
* *
34496573 TAATATTTTTTTGAGTTTTTATA
1 TAAT-TTTTTTTTA-TTTCTATA
34496596 TAATTTTTTTTTATTTCTATA
1 TAATTTTTTTTTATTTCTATA
34496617 TAATTTTTT
1 TAATTTTTT
34496626 ATTTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.57
22 8 0.29
23 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TAATTTTTTTTTATTTCTATA
Found at i:34496635 original size:19 final size:19
Alignment explanation
Indices: 34496570--34496636 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
34496560 AATTTTTAAA
* *
34496570 TTTTA-ATATTTTTTTGAGT
1 TTTTATATAATTTTTT-ATT
*
34496589 TTTTATATAATTTTTTTTT
1 TTTTATATAATTTTTTATT
34496608 ATTTCTATATAATTTTTTATT
1 -TTT-TATATAATTTTTTATT
34496629 TTTTATAT
1 TTTTATAT
34496637 TTTATATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.27
20 15 0.37
21 15 0.37
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTATATAATTTTTTATT
Found at i:34502303 original size:31 final size:32
Alignment explanation
Indices: 34502268--34502334 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
34502258 TTGATAAGTC
*
34502268 TTTATTTGAGCACTTTTAAAAAGGTTTGA-CA
1 TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
** * *
34502299 TTTATTTGATTACTTTCGAAAATGTTTGACCA
1 TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
34502331 TTTA
1 TTTA
34502335 AAAAGGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (32 bp):
TTTATTTGAGCACTTTCAAAAAGGTTTGACCA
Found at i:34507040 original size:34 final size:35
Alignment explanation
Indices: 34506994--34507063 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
34506984 TTGGTATTAA
*
34506994 AATTTCTATAAAATTTATGT-AAAATCAAACAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
* *
34507028 AATTTCTTTAAAATTTTTATAAAAATCAAACAATC
1 AATTTCTATAAAATTTATATAAAAATCAAACAATC
34507063 A
1 A
34507064 GAAAACAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.37
Consensus pattern (35 bp):
AATTTCTATAAAATTTATATAAAAATCAAACAATC
Found at i:34510338 original size:27 final size:27
Alignment explanation
Indices: 34510304--34510358 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
34510294 GATTGTAGGC
*
34510304 TTTCTCTAAGTCAACTTTGATTGCCAA
1 TTTCTCTAAATCAACTTTGATTGCCAA
34510331 TTTCTCTAAATCAACTTTGATTGCCAA
1 TTTCTCTAAATCAACTTTGATTGCCAA
34510358 T
1 T
34510359 GATGTGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTCTCTAAATCAACTTTGATTGCCAA
Found at i:34516217 original size:688 final size:688
Alignment explanation
Indices: 34514901--34516277 Score: 2754
Period size: 688 Copynumber: 2.0 Consensus size: 688
34514891 GCAAATTTAA
34514901 TGTGCAGGGGACACACGGCAGGACAACACGCCCATGGGGCTAGTCGTGTGTCATACACGGCCTAG
1 TGTGCAGGGGACACACGGCAGGACAACACGCCCATGGGGCTAGTCGTGTGTCATACACGGCCTAG
34514966 ACACATGCCCGTGTGTCTATCCGTGTGGACAAAATAAGGCTATTTACCAAGCCTTTTTGCCACCC
66 ACACATGCCCGTGTGTCTATCCGTGTGGACAAAATAAGGCTATTTACCAAGCCTTTTTGCCACCC
34515031 TTATTTGCATCAACCTACATAACATCTAACATGACAAATCCACACAACAGCACAAAGTCTAATCA
131 TTATTTGCATCAACCTACATAACATCTAACATGACAAATCCACACAACAGCACAAAGTCTAATCA
34515096 TCCACAGAAGGCATTAACTCATTCATGAAAATATCATCATCATTTGCATATATCAATAATGAATA
196 TCCACAGAAGGCATTAACTCATTCATGAAAATATCATCATCATTTGCATATATCAATAATGAATA
34515161 TTAGCCATTATCAAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAAT
261 TTAGCCATTATCAAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAAT
34515226 TAACATTGACACAAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAA
326 TAACATTGACACAAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAA
34515291 CTATACCAAGTGCTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAA
391 CTATACCAAGTGCTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAA
34515356 TTAGGTGGCACTATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGC
456 TTAGGTGGCACTATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGC
34515421 AAATAAATATAACAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTA
521 AAATAAATATAACAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTA
34515486 CGACTTACTCATTACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTT
586 CGACTTACTCATTACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTT
34515551 CAAATAGGTACCTGTACCACTCAAAACATGGTTATACT
651 CAAATAGGTACCTGTACCACTCAAAACATGGTTATACT
34515589 TGTGCAGGGGACACACGGCAGGACAACACGCCCATGGGGCTAGTCGTGTGTCATACACGGCCTAG
1 TGTGCAGGGGACACACGGCAGGACAACACGCCCATGGGGCTAGTCGTGTGTCATACACGGCCTAG
34515654 ACACATGCCCGTGTGTCTATCCGTGTGGACAAAATAAGGCTATTTACCAAGCCTTTTTGCCACCC
66 ACACATGCCCGTGTGTCTATCCGTGTGGACAAAATAAGGCTATTTACCAAGCCTTTTTGCCACCC
34515719 TTATTTGCATCAACCTACATAACATCTAACATGACAAATCCACACAACAGCACAAAGTCTAATCA
131 TTATTTGCATCAACCTACATAACATCTAACATGACAAATCCACACAACAGCACAAAGTCTAATCA
34515784 TCCACAGAAGGCATTAACTCATTCATGAAAATATCATCATCATTTGCATATATCAATAATGAATA
196 TCCACAGAAGGCATTAACTCATTCATGAAAATATCATCATCATTTGCATATATCAATAATGAATA
34515849 TTAGCCATTATCAAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAAT
261 TTAGCCATTATCAAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAAT
34515914 TAACATTGACACAAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAA
326 TAACATTGACACAAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAA
34515979 CTATACCAAGTGCTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAA
391 CTATACCAAGTGCTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAA
34516044 TTAGGTGGCACTATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGC
456 TTAGGTGGCACTATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGC
34516109 AAATAAATATAACAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTA
521 AAATAAATATAACAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTA
34516174 CGACTTACTCATTACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTT
586 CGACTTACTCATTACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTT
34516239 CAAATAGGTACCTGTACCACTCAAAACATGGTTATACT
651 CAAATAGGTACCTGTACCACTCAAAACATGGTTATACT
34516277 T
1 T
34516278 TTCTCATTTC
Statistics
Matches: 689, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
688 689 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (688 bp):
TGTGCAGGGGACACACGGCAGGACAACACGCCCATGGGGCTAGTCGTGTGTCATACACGGCCTAG
ACACATGCCCGTGTGTCTATCCGTGTGGACAAAATAAGGCTATTTACCAAGCCTTTTTGCCACCC
TTATTTGCATCAACCTACATAACATCTAACATGACAAATCCACACAACAGCACAAAGTCTAATCA
TCCACAGAAGGCATTAACTCATTCATGAAAATATCATCATCATTTGCATATATCAATAATGAATA
TTAGCCATTATCAAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAAT
TAACATTGACACAAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAA
CTATACCAAGTGCTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAA
TTAGGTGGCACTATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGC
AAATAAATATAACAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTA
CGACTTACTCATTACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTT
CAAATAGGTACCTGTACCACTCAAAACATGGTTATACT
Found at i:34517405 original size:803 final size:803
Alignment explanation
Indices: 34515861--34517466 Score: 3212
Period size: 803 Copynumber: 2.0 Consensus size: 803
34515851 AGCCATTATC
34515861 AAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAATTAACATTGACAC
1 AAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAATTAACATTGACAC
34515926 AAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAACTATACCAAGTG
66 AAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAACTATACCAAGTG
34515991 CTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAATTAGGTGGCACT
131 CTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAATTAGGTGGCACT
34516056 ATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGCAAATAAATATAA
196 ATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGCAAATAAATATAA
34516121 CAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTACGACTTACTCAT
261 CAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTACGACTTACTCAT
34516186 TACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTTCAAATAGGTACC
326 TACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTTCAAATAGGTACC
34516251 TGTACCACTCAAAACATGGTTATACTTTTCTCATTTCACTTAAATTGTAATTCTCACCGTTGAAC
391 TGTACCACTCAAAACATGGTTATACTTTTCTCATTTCACTTAAATTGTAATTCTCACCGTTGAAC
34516316 CATTTGGAATGCTATCGGATATTCACTAAGCCTCAAACCTAGGGTATAATGCCAATGCCATGTCC
456 CATTTGGAATGCTATCGGATATTCACTAAGCCTCAAACCTAGGGTATAATGCCAATGCCATGTCC
34516381 CAGACATGGTCTTACATTGGCTCATCCATCAAGTCGATGCCATGTCCCGGACATAGTCTTACACT
521 CAGACATGGTCTTACATTGGCTCATCCATCAAGTCGATGCCATGTCCCGGACATAGTCTTACACT
34516446 GACTAACGAAACCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCG
586 GACTAACGAAACCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCG
34516511 TGCTGATGCCATGTTCCAGACATGGTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCT
651 TGCTGATGCCATGTTCCAGACATGGTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCT
34516576 AGACATGGTCTTACACTGACACATCTCGTAGCTATGCATGTCCCAGACATGTCTTACACTAGCTC
716 AGACATGGTCTTACACTGACACATCTCGTAGCTATGCATGTCCCAGACATGTCTTACACTAGCTC
34516641 TCGTCTCAATGCTGATGCCATGT
781 TCGTCTCAATGCTGATGCCATGT
34516664 AAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAATTAACATTGACAC
1 AAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAATTAACATTGACAC
34516729 AAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAACTATACCAAGTG
66 AAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAACTATACCAAGTG
34516794 CTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAATTAGGTGGCACT
131 CTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAATTAGGTGGCACT
34516859 ATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGCAAATAAATATAA
196 ATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGCAAATAAATATAA
34516924 CAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTACGACTTACTCAT
261 CAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTACGACTTACTCAT
34516989 TACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTTCAAATAGGTACC
326 TACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTTCAAATAGGTACC
34517054 TGTACCACTCAAAACATGGTTATACTTTTCTCATTTCACTTAAATTGTAATTCTCACCGTTGAAC
391 TGTACCACTCAAAACATGGTTATACTTTTCTCATTTCACTTAAATTGTAATTCTCACCGTTGAAC
34517119 CATTTGGAATGCTATCGGATATTCACTAAGCCTCAAACCTAGGGTATAATGCCAATGCCATGTCC
456 CATTTGGAATGCTATCGGATATTCACTAAGCCTCAAACCTAGGGTATAATGCCAATGCCATGTCC
34517184 CAGACATGGTCTTACATTGGCTCATCCATCAAGTCGATGCCATGTCCCGGACATAGTCTTACACT
521 CAGACATGGTCTTACATTGGCTCATCCATCAAGTCGATGCCATGTCCCGGACATAGTCTTACACT
34517249 GACTAACGAAACCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCG
586 GACTAACGAAACCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCG
34517314 TGCTGATGCCATGTTCCAGACATGGTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCT
651 TGCTGATGCCATGTTCCAGACATGGTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCT
34517379 AGACATGGTCTTACACTGACACATCTCGTAGCTATGCATGTCCCAGACATGTCTTACACTAGCTC
716 AGACATGGTCTTACACTGACACATCTCGTAGCTATGCATGTCCCAGACATGTCTTACACTAGCTC
34517444 TCGTCTCAATGCTGATGCCATGT
781 TCGTCTCAATGCTGATGCCATGT
34517467 CTCAGACATG
Statistics
Matches: 803, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
803 803 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (803 bp):
AAGGCTTTATACAAAACCAAGGGGTTCATCCCAAGCTAACACCTTGGCTAAATTAACATTGACAC
AAAACTCAAAAGTCTAAGCCTTATACATGCCATACTCAAAATAATAAAACCAACTATACCAAGTG
CTGCGGTTGATAGTATGATCGATGCCTCCGACGTCCGATGATCCTCGAGCTAATTAGGTGGCACT
ATAAGAAAATGGAAAGGAGATAGAGTAAGCATAAAGCTTAGTAAGTTGCATGCAAATAAATATAA
CAACAACTTTACCATTCATCATCAATCTCCAAATACAATAGTAGGCATAAGTACGACTTACTCAT
TACTATCCAATATAATTCACGTAGCATATATTGAGATCACATCTCATACATTTCAAATAGGTACC
TGTACCACTCAAAACATGGTTATACTTTTCTCATTTCACTTAAATTGTAATTCTCACCGTTGAAC
CATTTGGAATGCTATCGGATATTCACTAAGCCTCAAACCTAGGGTATAATGCCAATGCCATGTCC
CAGACATGGTCTTACATTGGCTCATCCATCAAGTCGATGCCATGTCCCGGACATAGTCTTACACT
GACTAACGAAACCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCG
TGCTGATGCCATGTTCCAGACATGGTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCT
AGACATGGTCTTACACTGACACATCTCGTAGCTATGCATGTCCCAGACATGTCTTACACTAGCTC
TCGTCTCAATGCTGATGCCATGT
Found at i:34517473 original size:47 final size:47
Alignment explanation
Indices: 34517412--34517535 Score: 148
Period size: 47 Copynumber: 2.6 Consensus size: 47
34517402 TCTCGTAGCT
* **
34517412 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCGCTC-TCAAAAGTGGCTG
*
34517458 ATGCCATGTCTCAGACATGGTCTTACACT-G-GCTCTCAAAATGTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCGCTCTCAAAA-GTGGCTG
34517506 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
34517536 ACACAAGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 4 0.06
46 16 0.24
47 29 0.44
48 17 0.26
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCGCTCTCAAAAGTGGCTG
Found at i:34517479 original size:91 final size:91
Alignment explanation
Indices: 34517366--34517535 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 91
34517356 TATACGTGTC
34517366 GATGCCATATCCTAGACATGGTCTTACACTGACACATC-TCGTAGCT-ATGCATGTCCCAGACAT
1 GATGCCATATCCTAGACATGGTCTTACACTGACAC-TCAT-GTAGCTGATGCATGTCCCAGACAT
34517429 GTCTTACACTAGCTCTCGTCTCAATGCT
64 GTCTTACACTAGCTCTCGTCTCAATGCT
* * * *
34517457 GATGCCATGT-CTCAGACATGGTCTTACACTGGCTCTCAAAATGTGGCTGATGCATGTCCCAGAC
1 GATGCCATATCCT-AGACATGGTCTTACACTGACACTC---ATGTAGCTGATGCATGTCCCAGAC
34517521 ATGTCTTACACTAGC
62 ATGTCTTACACTAGC
34517536 ACACAAGTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
90 4 0.06
91 29 0.42
93 5 0.07
94 31 0.45
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (91 bp):
GATGCCATATCCTAGACATGGTCTTACACTGACACTCATGTAGCTGATGCATGTCCCAGACATGT
CTTACACTAGCTCTCGTCTCAATGCT
Found at i:34517540 original size:139 final size:141
Alignment explanation
Indices: 34517273--34517532 Score: 309
Period size: 139 Copynumber: 1.9 Consensus size: 141
34517263 AGGCTAACGC
* *
34517273 CATGTCCCAGACATGGTCTTACACCAGCTCTCACATATTCGTGCTGATGCCATGTTCCAGACATG
1 CATGTCCCAGACATGGTCTTACACCAGCTCT-ACATACTCATGCTGATGCCATGTTCCAGACATG
* * * * *
34517338 GTCTTATACTAACACCTCTATACGTGTCGATGCCATATCCTAGACATGGTCTTACACTGACACAT
65 GTCTTACACTAACACCTCAAAACGTGGCGATGCCATATCCCAGACATGGTCTTACACTGACACAT
34517403 CTCGTAGCTATG
130 CTCGTAGCTATG
* *
34517415 CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGT-CTCAATGCTGATGCCATG-TCTCAGACAT
1 CATGTCCCAGACATGGTCTTACACCAGCTCTACATACTC-ATGCTGATGCCATGTTC-CAGACAT
** * * *
34517476 GGTCTTACACTGGC-TCTCAAAATGTGGCTGATG-CATGTCCCAGACAT-GTCTTACACT
64 GGTCTTACACTAACACCTCAAAACGTGGC-GATGCCATATCCCAGACATGGTCTTACACT
34517533 AGCACACAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
137 10 0.10
138 25 0.25
139 37 0.37
141 15 0.15
142 14 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (141 bp):
CATGTCCCAGACATGGTCTTACACCAGCTCTACATACTCATGCTGATGCCATGTTCCAGACATGG
TCTTACACTAACACCTCAAAACGTGGCGATGCCATATCCCAGACATGGTCTTACACTGACACATC
TCGTAGCTATG
Found at i:34518153 original size:232 final size:232
Alignment explanation
Indices: 34517742--34518206 Score: 894
Period size: 232 Copynumber: 2.0 Consensus size: 232
34517732 TGACTAGTTC
34517742 AGCTGAGTCTACTAGCTTTGCTTTTTGCCGGTCTAGGCCGAATTTTTGTAATTCTTGATCTAAAA
1 AGCTGAGTCTACTAGCTTTGCTTTTTGCCGGTCTAGGCCGAATTTTTGTAATTCTTGATCTAAAA
34517807 TGATAGAAATTCATTCATTTCATCAGCATATTAATCTAGAAACTCGAAAATTCATAATTAGGCAA
66 TGATAGAAATTCATTCATTTCATCAGCATATTAATCTAGAAACTCGAAAATTCATAATTAGGCAA
*
34517872 AATGACCATTTTGCCCCTAGACTTTTACAAAATGACCATTTTACCCCTAGGTTCGAAATTCAATT
131 AATGACCATTGTGCCCCTAGACTTTTACAAAATGACCATTTTACCCCTAGGTTCGAAATTCAATT
34517937 TTTATCACATTTTCTCACTAACCAAGCCTAGCCGAAT
196 TTTATCACATTTTCTCACTAACCAAGCCTAGCCGAAT
*
34517974 AGCTTAGTCTACTAGCTTTGCTTTTTGCCGGTCTAGGCCGAATTTTTGTAATTCTTGATCTAAAA
1 AGCTGAGTCTACTAGCTTTGCTTTTTGCCGGTCTAGGCCGAATTTTTGTAATTCTTGATCTAAAA
*
34518039 TGATAGAAATTCATTCATTTCATCAGCATATTAATCTAGAAACTCGAAAATTCATAATTGGGCAA
66 TGATAGAAATTCATTCATTTCATCAGCATATTAATCTAGAAACTCGAAAATTCATAATTAGGCAA
*
34518104 AGTGACCATTGTGCCCCTAGACTTTTACAAAATGACCATTTTACCCCTAGGTTCGAAATTCAATT
131 AATGACCATTGTGCCCCTAGACTTTTACAAAATGACCATTTTACCCCTAGGTTCGAAATTCAATT
34518169 TTTATCACATTTTCTCACTAACCAAGCCTAGCCGAAT
196 TTTATCACATTTTCTCACTAACCAAGCCTAGCCGAAT
34518206 A
1 A
34518207 ATTTTTATAC
Statistics
Matches: 229, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 229 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (232 bp):
AGCTGAGTCTACTAGCTTTGCTTTTTGCCGGTCTAGGCCGAATTTTTGTAATTCTTGATCTAAAA
TGATAGAAATTCATTCATTTCATCAGCATATTAATCTAGAAACTCGAAAATTCATAATTAGGCAA
AATGACCATTGTGCCCCTAGACTTTTACAAAATGACCATTTTACCCCTAGGTTCGAAATTCAATT
TTTATCACATTTTCTCACTAACCAAGCCTAGCCGAAT
Found at i:34521889 original size:33 final size:33
Alignment explanation
Indices: 34521848--34521920 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
34521838 AGAGCCATGA
* *
34521848 AAAACCTTCTCAAAACTAACTTCCTTCACCAAG
1 AAAACCTTCTCAAAACTAACCTCATTCACCAAG
*
34521881 AAAACCTTCTCAAAACTAACCTCATTCATCAAG
1 AAAACCTTCTCAAAACTAACCTCATTCACCAAG
34521914 AAAACCT
1 AAAACCT
34521921 AGCTTTCGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.23
Consensus pattern (33 bp):
AAAACCTTCTCAAAACTAACCTCATTCACCAAG
Found at i:34524428 original size:149 final size:150
Alignment explanation
Indices: 34524157--34524435 Score: 470
Period size: 149 Copynumber: 1.9 Consensus size: 150
34524147 AAAAGTCAAT
* * *
34524157 TACTATCAAATAGTAATTAAGTCATTCATCACAAAGACAAATGACCTGTGACCACATTTACTTTT
1 TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
* * *
34524222 CATCTATCATGTAATGCTAATGAAAGGTTATCATTTACCCATGTCTTGGGCAATGAATTCCACTA
66 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
34524287 TACTATAGAAGTTGTATACA
131 TACTATAGAAGTTGTATACA
* * *
34524307 TACTATCAAATAGTAATTAAGTCATTCATCATAAAAACGAACGACCCGTGATCACATTTAC-TTT
1 TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
34524371 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
66 CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
34524436 CTATGAATTA
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
149 65 0.54
150 55 0.46
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (150 bp):
TACTATCAAATAGTAATTAAGTCATTCATCACAAAAACAAACGACCCGTGACCACATTTACTTTT
CATCTATCATGTAATGCCAATGAAAGGATATCATTTACCCATGTCTTGGGAAATGAATTCCACTA
TACTATAGAAGTTGTATACA
Found at i:34525020 original size:21 final size:20
Alignment explanation
Indices: 34524960--34525021 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
34524950 TTATGTTTTG
*
34524960 TTAATTAAG-TAAAATATGA
1 TTAATTAAGTTAAAATATAA
34524979 TTAATTAAGATTAAAATATAA
1 TTAATTAAG-TTAAAATATAA
*
34525000 TTAATTAAGTTATAATCATAA
1 TTAATTAAGTTAAAAT-ATAA
34525021 T
1 T
34525022 ATATACTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.24
20 6 0.16
21 23 0.61
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (20 bp):
TTAATTAAGTTAAAATATAA
Found at i:34525279 original size:20 final size:21
Alignment explanation
Indices: 34525254--34525292 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
34525244 TTTCCATGAT
34525254 TGTGAAATTGAT-GAAATTGG
1 TGTGAAATTGATAGAAATTGG
34525274 TGTGAAATTGATAGAAATT
1 TGTGAAATTGATAGAAATT
34525293 AAGCTTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
TGTGAAATTGATAGAAATTGG
Found at i:34532424 original size:19 final size:19
Alignment explanation
Indices: 34532400--34532444 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
34532390 ATTTTGGCAT
*
34532400 TATCTCACAAAATTTTTTA
1 TATCTCACAAAATTTATTA
34532419 TATCTCACAAAATTTATTA
1 TATCTCACAAAATTTATTA
34532438 TATCTCA
1 TATCTCA
34532445 TAATCTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (19 bp):
TATCTCACAAAATTTATTA
Found at i:34537884 original size:42 final size:42
Alignment explanation
Indices: 34537756--34537919 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 42
34537746 ACATAGGATC
* * * ** *
34537756 CGATATATGTTTTCGTGTAAGGCCACATCTGGGACATTGGCAT
1 CGATAT-TGATTTCATGTAAGACCATGTCTGGGACATCGGCAT
* *
34537799 TGACT-TATGATTTACATGTAAGACCATGTCTGGGATATCGGCAT
1 CGA-TAT-TGATTT-CATGTAAGACCATGTCTGGGACATCGGCAT
* *
34537843 C-ATATGTGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCAT
1 CGATAT-TGATTTCATGTAAGACCATGTCTGGGACA-TCGGCAT
* * *
34537885 CGATATTCGATTACATGTAAGACCACGTCTAGGAC
1 CGATATT-GATTTCATGTAAGACCATGTCTGGGAC
34537920 GTTGGCATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
42 28 0.29
43 44 0.45
44 25 0.26
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
CGATATTGATTTCATGTAAGACCATGTCTGGGACATCGGCAT
Found at i:34541931 original size:14 final size:14
Alignment explanation
Indices: 34541912--34541940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34541902 CTATGAGGAA
34541912 ATATATTTAATTTT
1 ATATATTTAATTTT
34541926 ATATATTTAATTTT
1 ATATATTTAATTTT
34541940 A
1 A
34541941 ACATTAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATATTTAATTTT
Found at i:34543679 original size:28 final size:28
Alignment explanation
Indices: 34543646--34543699 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
34543636 AGAGAGTATG
34543646 AAATTAGAAA-ACAAGAATA-TTAGTAAAT
1 AAATTAGAAATA-AA-AATATTTAGTAAAT
34543674 AAATTAGAAATAAAAATATTTAGTAA
1 AAATTAGAAATAAAAATATTTAGTAA
34543700 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.17
28 19 0.79
29 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (28 bp):
AAATTAGAAATAAAAATATTTAGTAAAT
Found at i:34543691 original size:27 final size:26
Alignment explanation
Indices: 34543646--34543718 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 26
34543636 AGAGAGTATG
34543646 AAATTAGAAA-ACAAGAATATTAGTAAAT
1 AAATTAGAAATA-AA-AATATTAGT-AAT
34543674 AAATTAGAAATAAAAATATTTAGTAAT
1 AAATTAGAAATAAAAATA-TTAGTAAT
*
34543701 TAATT--AAAT-AAAATATTA
1 AAATTAGAAATAAAAATATTA
34543719 ATATAGATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
23 3 0.07
24 6 0.14
25 4 0.10
27 11 0.26
28 17 0.40
29 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (26 bp):
AAATTAGAAATAAAAATATTAGTAAT
Found at i:34543769 original size:28 final size:30
Alignment explanation
Indices: 34543720--34543779 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 30
34543710 AAAATATTAA
*
34543720 TATAGATATTTATGTATCAAGT-ATGAAAT
1 TATAGATATTGATGTATCAAGTAATGAAAT
* * *
34543749 TATAG-TATTGATTTATTAAGTAATTAAAT
1 TATAGATATTGATGTATCAAGTAATGAAAT
34543778 TA
1 TA
34543780 AGAAAGTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.45
Consensus pattern (30 bp):
TATAGATATTGATGTATCAAGTAATGAAAT
Found at i:34546873 original size:25 final size:25
Alignment explanation
Indices: 34546845--34546901 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
34546835 AGGCATTATG
* * *
34546845 CCACATAGCCTTTATAAGTAACCTA
1 CCACAAAGACTTTACAAGTAACCTA
*
34546870 CCACAAAGACTTTACAGGTAACCTA
1 CCACAAAGACTTTACAAGTAACCTA
*
34546895 CAACAAA
1 CCACAAA
34546902 AGCTTCCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.28, G:0.09, T:0.21
Consensus pattern (25 bp):
CCACAAAGACTTTACAAGTAACCTA
Found at i:34546947 original size:46 final size:48
Alignment explanation
Indices: 34546870--34547002 Score: 155
Period size: 50 Copynumber: 2.8 Consensus size: 48
34546860 AAGTAACCTA
* * * * *
34546870 CCACAAAGACTTTACAGGTAAC-CTACAACAAAAGCTT-CC-TAAATCG
1 CCACAAAGGCTTTACAGGTGACTC-GCCACAAAGGCTTCCCATAAATCG
*
34546916 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAGTAAATTG
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCC-A-TAAATCG
*
34546966 CCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTT
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTT
34547003 TACAAGTGAC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
46 30 0.40
47 3 0.04
50 42 0.56
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (48 bp):
CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCATAAATCG
Found at i:34547009 original size:50 final size:50
Alignment explanation
Indices: 34546909--34547009 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
34546899 AAAAGCTTCC
*
34546909 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAG
1 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
* * *
34546959 TAAATTGCCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTTTACAAG
1 TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
34547009 T
1 T
34547010 GACTTACTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
TAAATCGCCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAG
Found at i:34547022 original size:50 final size:50
Alignment explanation
Indices: 34546916--34547025 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
34546906 TCCTAAATCG
* *
34546916 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCCCAAGTAAATTG
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
* * * *
34546966 CCACAAAGGCTTTATAGGTGACTCGCCACAAAGGCTTTACAAGTGACTTA
1 CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
*
34547016 CTACAAAGGC
1 CCACAAAGGC
34547026 ACTACATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (50 bp):
CCACAAAGGCTTTACAGGTGACTCGCCACAAAGGCTTCACAAGTAAATTA
Found at i:34547025 original size:25 final size:25
Alignment explanation
Indices: 34546913--34547013 Score: 130
Period size: 25 Copynumber: 4.0 Consensus size: 25
34546903 GCTTCCTAAA
*
34546913 TCGCCACAAAGGCTTTACAGGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
** * *
34546938 TCGCCACAAAGGCTTCCCAAGTAAA
1 TCGCCACAAAGGCTTTACAAGTGAC
* * *
34546963 TTGCCACAAAGGCTTTATAGGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
34546988 TCGCCACAAAGGCTTTACAAGTGAC
1 TCGCCACAAAGGCTTTACAAGTGAC
34547013 T
1 T
34547014 TACTACAAAG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (25 bp):
TCGCCACAAAGGCTTTACAAGTGAC
Found at i:34549219 original size:43 final size:43
Alignment explanation
Indices: 34549154--34549320 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
34549144 AGCTCGTACA
* * * * *
34549154 ATGCC-ATATCCCAGATAAGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
34549196 ATGCCAATGTCCCAGACATGGTCTTACACGGAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
34549239 ATGCCAATGTCCCAAACATGATATTACACATAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * * *
34549282 ATGCCAATGTTCTAGACATGGTCTTACATGCAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
34549321 TTCGGTAATC
Statistics
Matches: 98, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 6 0.06
43 92 0.94
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:34550615 original size:51 final size:51
Alignment explanation
Indices: 34550546--34550642 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
34550536 AACAACTGCA
* * *
34550546 TACATGATTATGAAATTTCCATTAGAATCCCTATTTACAGATAGTTCACCT
1 TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTTCACCT
*
34550597 TACAAGATCATGAAATTTCCATTATAATACCTATTTACAGATAGTT
1 TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTT
34550643 TACTAACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (51 bp):
TACAAGATCATGAAATTTCCATTAGAATACCTATTTACAGATAGTTCACCT
Found at i:34554548 original size:22 final size:20
Alignment explanation
Indices: 34554511--34554553 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
34554501 TATTACTTTA
34554511 TCCATTTTTTTATTTTTATT
1 TCCATTTTTTTATTTTTATT
*
34554531 TCCATTTAATTTTGTTTTTATT
1 TCCATTT--TTTTATTTTTATT
34554553 T
1 T
34554554 TTACTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (20 bp):
TCCATTTTTTTATTTTTATT
Found at i:34558956 original size:54 final size:54
Alignment explanation
Indices: 34558874--34558981 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
34558864 ATTACAGTGG
* *
34558874 GACTAAGACCGCAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACGCTATT
1 GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
* *
34558928 GACTAATACCACACATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
1 GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
34558982 CAAAGACACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (54 bp):
GACTAAGACCACAAATAAAACGCTCGAATCAGGTTTTTATTGGCCCACACTATT
Found at i:34559252 original size:25 final size:25
Alignment explanation
Indices: 34559218--34559267 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
34559208 GATGCTAGAG
*
34559218 TAGTGGTGAGGTTCCTTAAGAAACT
1 TAGTGGTGAGATTCCTTAAGAAACT
34559243 TAGTGGTGAGATTCCTTAAGAAACT
1 TAGTGGTGAGATTCCTTAAGAAACT
34559268 CTTCTCTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (25 bp):
TAGTGGTGAGATTCCTTAAGAAACT
Found at i:34563039 original size:17 final size:17
Alignment explanation
Indices: 34563006--34563046 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34562996 TTGAGTTTAA
34563006 TTATTTTCACTTTGTTT
1 TTATTTTCACTTTGTTT
*
34563023 TTCTTTTC-CTTTCGTTT
1 TTATTTTCACTTT-GTTT
34563040 TTATTTT
1 TTATTTT
34563047 TATTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.07, C:0.15, G:0.05, T:0.73
Consensus pattern (17 bp):
TTATTTTCACTTTGTTT
Found at i:34565301 original size:109 final size:109
Alignment explanation
Indices: 34565110--34565324 Score: 403
Period size: 109 Copynumber: 2.0 Consensus size: 109
34565100 TCCACATGGG
34565110 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
1 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
*
34565175 ATTAAACCATATCAGAATTACACACGGCCTGAGCACCTTCACAC
66 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCACAC
* *
34565219 TAATCCACACGTCAGTGCGCGACACACGGGTAATCCACAGGCCAGTGTGTCATGGCCGTGTCGAC
1 TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
34565284 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCA
66 ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCA
34565325 TACTGGCGTG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (109 bp):
TAATCCACACGCCAGTGCGCGACACACGGGTAATCCACACGCCAGTGTGTCATGGCCGTGTCGAC
ATTAAACCACATCAGAATTACACACGGCCTGAGCACCTTCACAC
Found at i:34572399 original size:16 final size:16
Alignment explanation
Indices: 34572374--34572421 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
34572364 TTTTTTCTTT
34572374 TTGGAAATTTAATTAG
1 TTGGAAATTTAATTAG
*
34572390 TTGGATA-TT--TT--
1 TTGGAAATTTAATTAG
34572401 TTGGAAATTTAATTAG
1 TTGGAAATTTAATTAG
34572417 TTGGA
1 TTGGA
34572422 TAGTGATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
11 6 0.24
12 2 0.08
13 2 0.08
14 2 0.08
15 2 0.08
16 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (16 bp):
TTGGAAATTTAATTAG
Found at i:34572408 original size:27 final size:27
Alignment explanation
Indices: 34572371--34572423 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
34572361 TATTTTTTTC
34572371 TTTTTGGAAATTTAATTAGTTGGATAT
1 TTTTTGGAAATTTAATTAGTTGGATAT
34572398 TTTTTGGAAATTTAATTAGTTGGATA
1 TTTTTGGAAATTTAATTAGTTGGATA
34572424 GTGATTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (27 bp):
TTTTTGGAAATTTAATTAGTTGGATAT
Found at i:34576814 original size:26 final size:26
Alignment explanation
Indices: 34576784--34576891 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
34576774 TGAAATTCCC
34576784 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34576810 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
34576836 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34576862 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
34576888 ATCA
1 ATCA
34576892 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:34583083 original size:343 final size:342
Alignment explanation
Indices: 34582433--34583110 Score: 1223
Period size: 343 Copynumber: 2.0 Consensus size: 342
34582423 AAACCTTTGT
34582433 GTATGCTTTTAAAAAAAGGTATTGTTTTTTTTTATTTTAACAAAACATGTTTAAAAGCTTTTAAG
1 GTATGCTTTTAAAAAAAGGTATTGTTTTTTTTTATTTTAACAAAACATGTTTAAAAGCTTTTAAG
*
34582498 GAATGGAAAATCATTTAATCTCAGGCCCAATAATTGTTACACTTGATTGGAACTCTCATTTTGAA
66 GAATGGAAAAGCATTTAATCTCAGGCCCAATAATTGTTACACTTGATTGGAACTCTCATTTTGAA
* **
34582563 TTGATGTGTGACGCAAGTGACTTCGTTGTTGGAGCTATGATGGGTCAAAAAAGAAACAAAGTGTT
131 TTGATGTGTGACACAAGTGACTTCACTGTTGGAGCTATGATGGGTCAAAAAAGAAACAAAGTGTT
*
34582628 TCACCCTATCTACTATGCAAGCAAAACTTTGACAGAAGCCCAACTCAATCACACAGTAACTGAAA
196 TCACCCTATCTACTATGCAAGCAAAACTTTGACAAAAGCCCAACTCAATCACACAGTAACTGAAA
34582693 AAGAACCCTTTGCTATAGTTTTTACTTTTGAAAAGTTCTGTTCATATCTTATAGTTACTAAAGTT
261 AAGAACCCTTTGCTATAGTTTTTACTTTTGAAAAGTTCTGTTCATATCTTATAGTTACTAAAGTT
34582758 ACAGTATTTAGAAAAAG
326 ACAGTATTTAGAAAAAG
34582775 GTATGCTTTTAAAAAAAGGTATTGTTTTTTTTTTTATTTTAACAAAACATGTTTAAAAGCTTTTA
1 GTATGCTTTTAAAAAAAGGTATTG--TTTTTTTTTATTTTAACAAAACATGTTTAAAAGCTTTTA
* * *
34582840 AGGAATGGAAAAGCGTTTAATCTCA-GCCCAATAATTGTTACATTTGATTGGAACTCTCCTTTTG
64 AGGAATGGAAAAGCATTTAATCTCAGGCCCAATAATTGTTACACTTGATTGGAACTCTCATTTTG
*
34582904 AATTGATGTGTGACACAAGTGACTTCACTGTTGGAGCTATGATGGGTCAAAAAAGAAACAATGTG
129 AATTGATGTGTGACACAAGTGACTTCACTGTTGGAGCTATGATGGGTCAAAAAAGAAACAAAGTG
* * *
34582969 TTTCACCCTATCTACTATGCAAGTAAAACTTTGACAAAAGCCCAACTCAATCATACAGTAATTGA
194 TTTCACCCTATCTACTATGCAAGCAAAACTTTGACAAAAGCCCAACTCAATCACACAGTAACTGA
34583034 AAAAGAACCCTTTGCTATAGTTTTTACTTTTGAAAAGTTCTGTTCATATCTTATAGTTACTAAAG
259 AAAAGAACCCTTTGCTATAGTTTTTACTTTTGAAAAGTTCTGTTCATATCTTATAGTTACTAAAG
34583099 TTACAGTATTTA
324 TTACAGTATTTA
34583111 TTGACCATGC
Statistics
Matches: 322, Mismatches: 12, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
342 24 0.07
343 236 0.73
344 62 0.19
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (342 bp):
GTATGCTTTTAAAAAAAGGTATTGTTTTTTTTTATTTTAACAAAACATGTTTAAAAGCTTTTAAG
GAATGGAAAAGCATTTAATCTCAGGCCCAATAATTGTTACACTTGATTGGAACTCTCATTTTGAA
TTGATGTGTGACACAAGTGACTTCACTGTTGGAGCTATGATGGGTCAAAAAAGAAACAAAGTGTT
TCACCCTATCTACTATGCAAGCAAAACTTTGACAAAAGCCCAACTCAATCACACAGTAACTGAAA
AAGAACCCTTTGCTATAGTTTTTACTTTTGAAAAGTTCTGTTCATATCTTATAGTTACTAAAGTT
ACAGTATTTAGAAAAAG
Found at i:34589695 original size:12 final size:13
Alignment explanation
Indices: 34589677--34589725 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
34589667 AAAAAATATG
34589677 ATATTTAATAATA
1 ATATTTAATAATA
34589690 AT-TTTAA-AATA
1 ATATTTAATAATA
*
34589701 GTATTTAATATATA
1 ATATTTAATA-ATA
*
34589715 ATATATAATAA
1 ATATTTAATAA
34589726 AAAAATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 5 0.17
12 10 0.33
13 4 0.13
14 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
ATATTTAATAATA
Found at i:34589724 original size:24 final size:24
Alignment explanation
Indices: 34589669--34589722 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
34589659 TACTTATAAA
*
34589669 AAAATATGATATTTAATAATAATTTT
1 AAAATA-G-TATTTAATAATAATTAT
34589695 AAAATAGTATTTAATATATAATATAT
1 AAAATAGTATTTAATA-ATAAT-TAT
34589721 AA
1 AA
34589723 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 6 0.24
26 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AAAATAGTATTTAATAATAATTAT
Found at i:34590066 original size:13 final size:13
Alignment explanation
Indices: 34590050--34590172 Score: 71
Period size: 13 Copynumber: 9.3 Consensus size: 13
34590040 AAAAAAAGAC
34590050 ATAATAATATAAA
1 ATAATAATATAAA
*
34590063 AT-A-AATATAAT
1 ATAATAATATAAA
34590074 AT-ATAATATGAAA
1 ATAATAATAT-AAA
34590087 AT-ATATATATAAAA
1 ATAATA-ATAT-AAA
*
34590101 ATAAT-ATATAAT
1 ATAATAATATAAA
*
34590113 ATATATAAATAATATGA
1 ATA-AT-AAT-ATA-AA
34590130 ATAATAAATAATAAA
1 ATAAT-AAT-ATAAA
* *
34590145 ATAATTATATAAT
1 ATAATAATATAAA
34590158 ATAAT-ATA-AAA
1 ATAATAATATAAA
34590169 ATAA
1 ATAA
34590173 GATTAAAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
11 16 0.18
12 14 0.15
13 24 0.26
14 11 0.12
15 10 0.11
16 13 0.14
17 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:34590099 original size:32 final size:31
Alignment explanation
Indices: 34590055--34590172 Score: 94
Period size: 32 Copynumber: 3.6 Consensus size: 31
34590045 AAGACATAAT
*
34590055 AATATAAAATAAATATAATATATAATATGAA
1 AATATAAAATAAAAATAATATATAATATGAA
* *
34590086 AATATATATATAAAAATAATATATAATATATATA
1 AATATA-AAATAAAAATAATATATAATAT-GA-A
* * *
34590120 AATAATATGAATAATAAATAATAAAATAATTAT-AT
1 AAT-ATA-AAATAA-AAATAAT-ATATAA-TATGAA
*
34590155 AATATAATATAAAAATAA
1 AATATAAAATAAAAATAA
34590173 GATTAAAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
31 6 0.08
32 26 0.37
33 5 0.07
34 7 0.10
35 11 0.15
36 8 0.11
37 5 0.07
38 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
AATATAAAATAAAAATAATATATAATATGAA
Found at i:34590123 original size:58 final size:58
Alignment explanation
Indices: 34590008--34590165 Score: 139
Period size: 58 Copynumber: 2.7 Consensus size: 58
34589998 TTTTGATAAT
* * * *
34590008 AATAATATAGATAAAAAATATATAATAGTATAAAAAAAAGACATAATAATATAAAATAAATAT-
1 AATAATA-A-ATAATAAA-ATAT-ATA-TATAAAAATAATATATAATAATATAAAAT-AATATG
34590071 AAT-ATATAAT-ATGAAAATATATATATAAAAATAATATATAAT-ATATATAAATAATATG
1 AATAATA-AATAAT-AAAATATATATATAAAAATAATATATAATAATATA-AAATAATATG
*
34590129 AATAATAAATAATAAAATA-AT-TATATAATATAATATA
1 AATAATAAATAATAAAATATATATATA-AAAATAATATA
34590166 AAAATAAGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
56 4 0.05
57 22 0.26
58 32 0.38
59 8 0.10
60 5 0.06
61 5 0.06
62 5 0.06
63 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (58 bp):
AATAATAAATAATAAAATATATATATAAAAATAATATATAATAATATAAAATAATATG
Found at i:34590144 original size:45 final size:44
Alignment explanation
Indices: 34590050--34590184 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 44
34590040 AAAAAAAGAC
* * * *
34590050 ATAATAATATAAAATA-AATATA-ATATATAATATGAA-AATAT
1 ATAATAAAATAATATATAATATATATAAATAATATGAATAATAA
34590091 ATATATAAAAATAATATATAATATATATAAATAATATGAATAATAA
1 ATA-AT-AAAATAATATATAATATATATAAATAATATGAATAATAA
* *
34590137 ATAATAAAATAATTATATAATATAATATAAA-AATAAGATTAA-AA
1 ATAATAAAATAA-TATATAATAT-ATATAAATAATATGAATAATAA
34590181 ATAA
1 ATAA
34590185 AACAGATAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
41 3 0.04
42 2 0.02
43 9 0.11
44 19 0.23
45 34 0.42
46 14 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (44 bp):
ATAATAAAATAATATATAATATATATAAATAATATGAATAATAA
Found at i:34592298 original size:205 final size:204
Alignment explanation
Indices: 34591836--34592546 Score: 1145
Period size: 205 Copynumber: 3.5 Consensus size: 204
34591826 GCTTCTTTGG
* * * * *
34591836 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACATGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
* *
34591901 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGTCAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGT-AAATCATCTTGGATC-
*
34591966 TGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGAT
129 TGCTTCAGT-ATAAATATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGAT
*
34592030 GCCAGACTTTGA
193 GCCAGACTTCGA
* * *
34592042 TTTGTTCTCTGACAATGCAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
34592107 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATG-TAAATCATCTTGGATCT
* * * *
34592172 GCTTCAGTATAAACATCTGAATGTGAGATCTACTATGTATCTGCTCCTCGTTGAAGTGGAGATGC
130 GCTTCAGTATAAATATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
*
34592237 CAGAATTCGA
195 CAGACTTCGA
* *
34592247 TTTGCTCTCTAACAATACAGAGATGACAAATTATCTTAGATTTGCTTCATCATAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
34592312 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGTTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATG-TAAATCATCTTGGATCT
34592377 GCTTCAGTATAAATATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
130 GCTTCAGTATAAATATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
34592442 CAGACTTCGA
195 CAGACTTCGA
* * * * *
34592452 TTTGCTCTCTAACAATATAGAGATTCCAAATCATCTTAGATTTGCTTCAACGTAAACATGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
*
34592517 GCCAAATCAGCTATGTCTTCGATCTGCTCC
66 GCCAAATCAGCTATGTCTTCGATTTGCTCC
34592547 CCGCCTGATT
Statistics
Matches: 471, Mismatches: 32, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
204 1 0.00
205 348 0.74
206 121 0.26
207 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (204 bp):
TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGTAAATCATCTTGGATCTG
CTTCAGTATAAATATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCC
AGACTTCGA
Found at i:34592594 original size:88 final size:85
Alignment explanation
Indices: 34592470--34592712 Score: 324
Period size: 88 Copynumber: 2.8 Consensus size: 85
34592460 CTAACAATAT
* *
34592470 AGAGATTCCAAATCATCTTAGATTTGCTTCAACGTAAACATGTGAAAGCCAAATCAGCTATGTCT
1 AGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
**
34592535 TCGATCTGCTCCCCGCCTGATTC
66 TCGATCTGCTCCCCG--T-AAGC
*
34592558 AGAGATACCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
1 AGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
* **
34592623 TCGATTTGCTCCTTGTAAGC
66 TCGATCTGCTCCCCGTAAGC
* * *
34592643 ACAAGGATGCCAAACCANATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTAT
1 A-GA-GATACCAAATC--ATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTAT
34592708 GTCTT
62 GTCTT
34592713 TGGTTTGTTC
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
85 3 0.02
86 2 0.01
87 9 0.06
88 74 0.53
89 51 0.37
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (85 bp):
AGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCT
TCGATCTGCTCCCCGTAAGC
Found at i:34592696 original size:89 final size:87
Alignment explanation
Indices: 34592477--34592765 Score: 357
Period size: 89 Copynumber: 3.3 Consensus size: 87
34592467 TATAGAGATT
* * *
34592477 CCAAATCATCTTAGATTTGCTTCAACGTAAACATGTGAAAGCCAAATCAGCTATGTCTTCGATCT
1 CCAAACCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTT
** * ** *
34592542 GCTCCCCGCCTGA-TTC-AGAGATA
66 GCTCCTTG--TAAGCACAAG-GATG
* *
34592565 CCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTT
1 CCAAACCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTT
34592630 GCTCCTTGTAAGCACAAGGATG
66 GCTCCTTGTAAGCACAAGGATG
* *
34592652 CCAAACCANATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTTGGT
1 CCAAACC--ATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGAT
* *
34592717 TTGTTCCTTGTAAGCACAAGAATG
64 TTGCTCCTTGTAAGCACAAGGATG
* *
34592741 CCGAACCATCTTGGATCTTGCTTCA
1 CCAAACCATCTTAGAT-TTGCTTCA
34592766 GCCAGATCTG
Statistics
Matches: 179, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
86 2 0.01
87 18 0.10
88 78 0.44
89 81 0.45
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (87 bp):
CCAAACCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTT
GCTCCTTGTAAGCACAAGGATG
Found at i:34603555 original size:46 final size:45
Alignment explanation
Indices: 34603502--34603677 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
34603492 TATTTGGGCA
34603502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
34603548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
34603595 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
34603641 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34603678 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:34603657 original size:93 final size:93
Alignment explanation
Indices: 34603498--34603669 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
34603488 AGGATATTTG
* *
34603498 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34603563 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
34603591 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
34603656 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
34603670 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:34606667 original size:15 final size:15
Alignment explanation
Indices: 34606647--34606715 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
34606637 GTATCTTGGG
34606647 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34606662 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34606677 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34606692 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34606707 TTTCTTTAT
1 TTTCTTTAT
34606716 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34606716 original size:30 final size:30
Alignment explanation
Indices: 34606638--34606725 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
34606628 CATAGTATCG
* * * *
34606638 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
34606668 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
34606698 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
34606726 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:34609167 original size:46 final size:46
Alignment explanation
Indices: 34609117--34609292 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34609107 TGGTTGAGCA
34609117 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34609163 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34609208 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34609256 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34609293 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34609273 original size:93 final size:93
Alignment explanation
Indices: 34609114--34609284 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34609104 GGATGGTTGA
* *
34609114 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34609179 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
34609207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34609272 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34609285 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:34612266 original size:15 final size:15
Alignment explanation
Indices: 34612246--34612314 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
34612236 GTATCTTGGG
34612246 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34612261 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34612276 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34612291 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34612306 TTTCTTTAT
1 TTTCTTTAT
34612315 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34612315 original size:30 final size:30
Alignment explanation
Indices: 34612237--34612324 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
34612227 CATAGTATCG
* * * *
34612237 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
34612267 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
34612297 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
34612325 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:34614766 original size:46 final size:46
Alignment explanation
Indices: 34614716--34614891 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
34614706 TGGTTGAGCA
34614716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34614762 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34614807 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34614855 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34614892 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34614872 original size:93 final size:93
Alignment explanation
Indices: 34614713--34614883 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34614703 GGATGGTTGA
* *
34614713 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34614778 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34614806 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34614871 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34614884 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34617835 original size:15 final size:15
Alignment explanation
Indices: 34617815--34617883 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
34617805 GTATCTTGGG
34617815 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34617830 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34617845 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34617860 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34617875 TTTCTTTAT
1 TTTCTTTAT
34617884 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34617884 original size:30 final size:30
Alignment explanation
Indices: 34617806--34617893 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
34617796 CATAGTATCG
* * * *
34617806 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
34617836 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
34617866 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
34617894 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:34623666 original size:92 final size:92
Alignment explanation
Indices: 34623497--34623676 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
34623487 CAAATAATAA
* * * * *
34623497 CTGCCAGTATAAGTTTTGGATAAACCATGAGTGCTTACAGGTTGATACATTATCATTAGTTGTGA
1 CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
*
34623562 ATACAAATTGGTTTTTGTAGATGTTAG
66 ATACAAATTGGTTTTTGCAGATGTTAG
* **
34623589 CTGCTAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATATGTTACCAGTAGTTGTGA
1 CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
34623654 ATACACAA-TGGTTTTTGCAGATG
66 ATACA-AATTGGTTTTTGCAGATG
34623677 AAAGTTGCCA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 76 0.97
93 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (92 bp):
CTGCCAGTATAAGTTATGGATAAACCACGAGTGCTTACAGGTTAATACATTACCAGTAGTTGTGA
ATACAAATTGGTTTTTGCAGATGTTAG
Found at i:34627282 original size:21 final size:20
Alignment explanation
Indices: 34627234--34627282 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
34627224 GGCTACTCAG
34627234 AAAATTTTTAATGAAATTTC
1 AAAATTTTTAATGAAATTTC
34627254 AAAATTTTTAATGAAATTTC
1 AAAATTTTTAATGAAATTTC
34627274 AAAATTTTT
1 AAAATTTTT
34627283 CCGACATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
AAAATTTTTAATGAAATTTC
Found at i:34627511 original size:13 final size:13
Alignment explanation
Indices: 34627493--34627518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34627483 AGGGGTCACG
34627493 CGGCCAAGCCACA
1 CGGCCAAGCCACA
34627506 CGGCCAAGCCACA
1 CGGCCAAGCCACA
34627519 TGCCCGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.46, G:0.23, T:0.00
Consensus pattern (13 bp):
CGGCCAAGCCACA
Found at i:34628734 original size:23 final size:23
Alignment explanation
Indices: 34628704--34628751 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34628694 GGATAACCAT
*
34628704 ATATCGGGAAGATCAAGCGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
* *
34628727 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGGGAAGATCAAGAGAGCC
34628750 AT
1 AT
34628752 TAATCAGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (23 bp):
ATATCGGGAAGATCAAGAGAGCC
Found at i:34628774 original size:26 final size:26
Alignment explanation
Indices: 34628744--34628803 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
34628734 GAAGCTCTAG
*
34628744 AGAGCCATTAATC-AGGAAACTTACAA
1 AGAGCCATTAATCGA-GAAACTCACAA
* *
34628770 AGAGCCTTTAATCGAGAAGCTCACAA
1 AGAGCCATTAATCGAGAAACTCACAA
34628796 AGAGCCAT
1 AGAGCCAT
34628804 ATACCAGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAACTCACAA
Found at i:34636521 original size:18 final size:18
Alignment explanation
Indices: 34636480--34636514 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34636470 AATTGCTTTT
*
34636480 GCTTTTGGGTTCAAAAGA
1 GCTTTTGAGTTCAAAAGA
34636498 GCTTTTGAGTTCAAAAG
1 GCTTTTGAGTTCAAAAG
34636515 CACTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
GCTTTTGAGTTCAAAAGA
Found at i:34636528 original size:18 final size:18
Alignment explanation
Indices: 34636489--34636531 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34636479 TGCTTTTGGG
* *
34636489 TTCAAAAGAGCTTTTGAG
1 TTCAAAAGAGCTTTTCAC
34636507 TTCAAAAGCA-CTTTTCAC
1 TTCAAAAG-AGCTTTTCAC
34636525 TTCAAAA
1 TTCAAAA
34636532 ATTATCCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (18 bp):
TTCAAAAGAGCTTTTCAC
Found at i:34639251 original size:21 final size:21
Alignment explanation
Indices: 34639221--34639273 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
34639211 GTATTATATT
*
34639221 TTATAGAAAAAATCAT-CCACC
1 TTATATAAAAAA-CATACCACC
*
34639242 TTATATAAAAAACTTACCACC
1 TTATATAAAAAACATACCACC
34639263 TTAT-TAAAAAA
1 TTATATAAAAAA
34639274 ACCCTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (21 bp):
TTATATAAAAAACATACCACC
Found at i:34644586 original size:17 final size:17
Alignment explanation
Indices: 34644551--34644601 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
34644541 AATTGATACA
* **
34644551 TTTTGTTTCACCACCAG
1 TTTTGTTTCACTATGAG
34644568 TTTTGTTTCACTATGAG
1 TTTTGTTTCACTATGAG
*
34644585 TTTCGTTTCACTATGAG
1 TTTTGTTTCACTATGAG
34644602 CGTATAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.47
Consensus pattern (17 bp):
TTTTGTTTCACTATGAG
Found at i:34644828 original size:31 final size:31
Alignment explanation
Indices: 34644793--34644852 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
34644783 ATCCTTTAAC
*
34644793 TATTTGAGAGGTTTCATTTAAGTTATTGAAT
1 TATTTGAAAGGTTTCATTTAAGTTATTGAAT
* *
34644824 TATTTGAAAGTTTTTATTTAAGTTATTGA
1 TATTTGAAAGGTTTCATTTAAGTTATTGA
34644853 GCTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (31 bp):
TATTTGAAAGGTTTCATTTAAGTTATTGAAT
Found at i:34649454 original size:43 final size:43
Alignment explanation
Indices: 34649372--34649527 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
34649362 TGAGACATCG
* * * * *
34649372 TGTAAGACCGTGTATGGGACA-CAGGCCTCGAT-TGAGATTTACG
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTACA
* *
34649415 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTGATTT-CT
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* *** *
34649457 TGTAAGACCCTGTCTGGGACAAAAGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* *
34649500 TGTAAGACTACGTCTGGGACATCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
34649528 TGTACTTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 32 0.36
43 56 0.63
44 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:34656754 original size:43 final size:42
Alignment explanation
Indices: 34656644--34656754 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
34656634 GATTTACGTA
* *
34656644 TAAGACCATGTCTGGGACATCGGCATCGTATCTGACTTCATG
1 TAAGACCACGTCTGGGACATCGGCATCGTATCTGAATTCATG
* * **
34656686 TACGACCTTC-TCTGGGACAGAGGCATCGATAT-TGAATTACATG
1 TAAGACC-ACGTCTGGGACATCGGCATCG-TATCTGAATT-CATG
*
34656729 TAAGACCACGTCCGGGACATCGGCAT
1 TAAGACCACGTCTGGGACATCGGCAT
34656755 TGTACTTGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATCGGCATCGTATCTGAATTCATG
Found at i:34659679 original size:16 final size:16
Alignment explanation
Indices: 34659660--34659690 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34659650 CTTCTTCACT
34659660 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
34659676 TACTTACTTACTTAA
1 TACTCACTTACTTAA
34659691 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:34659696 original size:20 final size:20
Alignment explanation
Indices: 34659657--34659696 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34659647 AAACTTCTTC
* *
34659657 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
34659677 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
34659697 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:34660072 original size:55 final size:53
Alignment explanation
Indices: 34659929--34660136 Score: 186
Period size: 55 Copynumber: 3.8 Consensus size: 53
34659919 ATCCTTTTGA
* * *
34659929 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
34659982 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * * * *** *
34660036 TAACTTATCAATGTCATGTCTTGACATGGCCTTACATGATTTCCGTGCCTTA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
34660089 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
34660137 AAATTATAGT
Statistics
Matches: 123, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 46 0.37
54 8 0.07
55 65 0.53
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Done.